/* Copyright (c) 1999-2017 Massachusetts Institute of Technology
*
* Permission is hereby granted, free of charge, to any person obtaining
* a copy of this software and associated documentation files (the
* "Software"), to deal in the Software without restriction, including
* without limitation the rights to use, copy, modify, merge, publish,
* distribute, sublicense, and/or sell copies of the Software, and to
* permit persons to whom the Software is furnished to do so, subject to
* the following conditions:
*
* The above copyright notice and this permission notice shall be
* included in all copies or substantial portions of the Software.
*
* THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,
* EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF
* MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT.
* IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY
* CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN ACTION OF CONTRACT,
* TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNECTION WITH THE
* SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE.
*/
#include <stdlib.h>
#include <stdio.h>
#include <string.h>
#include <unistd.h>
#include "config.h"
#include "arrayh5.h"
#include "copyright.h"
#include "h5utils.h"
#define CHECK(cond, msg) { if (!(cond)) { fprintf(stderr, "h5totxt error: %s\n", msg); exit(EXIT_FAILURE); } }
void usage(FILE *f)
{
fprintf(f, "Usage: h5totxt [options] [<filenames>]\n"
"Options:\n"
" -h : this help message\n"
" -V : print version number and copyright\n"
" -v : verbose output\n"
" -s <sep> : use <sep> to separate columns [ default: \",\" ]\n"
" -o <file> : output to <file> (first input file only)\n"
" -x <ix> : take x=<ix> slice of data\n"
" -y <iy> : take y=<iy> slice of data\n"
" -z <iz> : take z=<iz> slice of data\n"
" -t <it> : take t=<it> slice of data's last dimension\n"
" -0 : use dataset center as origin for -x/-y/-z\n"
" -T : transpose the data [default: no]\n"
" -. <n> : output <n> decimal places [ default: 16 ]\n"
" -d <name> : use dataset <name> in the input files (default: first dataset)\n"
" -- you can also specify a dataset via <filename>:<name>\n"
);
}
int main(int argc, char **argv)
{
arrayh5 a;
char *txt_fname = NULL, *data_name = NULL;
extern char *optarg;
extern int optind;
int c;
int slicedim[4] = {NO_SLICE_DIM,NO_SLICE_DIM,NO_SLICE_DIM,NO_SLICE_DIM};
int islice[4], center_slice[4] = {0,0,0,0};
int err;
int nx, ny, nz;
int dec = 16;
int verbose = 0;
int transpose = 0;
char *sep;
int ifile;
sep = my_strdup(",");
while ((c = getopt(argc, argv, "ho:x:y:z:t:0ad:vTs:.:V")) != -1)
switch (c) {
case 'h':
usage(stdout);
return EXIT_SUCCESS;
case 'V':
printf("h5totxt " PACKAGE_VERSION " by Steven G. Johnson\n"
COPYRIGHT);
return EXIT_SUCCESS;
case 'v':
verbose = 1;
break;
case '0':
center_slice[0] = center_slice[1] = center_slice[2] = 1;
break;
case 'T':
transpose = 1;
break;
case 'o':
free(txt_fname);
txt_fname = my_strdup(optarg);
break;
case 's':
free(sep);
sep = my_strdup(optarg);
break;
case 'd':
free(data_name);
data_name = my_strdup(optarg);
break;
case '.':
dec = atoi(optarg);
break;
case 'x':
islice[0] = atoi(optarg);
slicedim[0] = 0;
break;
case 'y':
islice[1] = atoi(optarg);
slicedim[1] = 1;
break;
case 'z':
islice[2] = atoi(optarg);
slicedim[2] = 2;
break;
case 't':
islice[3] = atoi(optarg);
slicedim[3] = LAST_SLICE_DIM;
break;
case 'a':
slicedim[0] = slicedim[1] = slicedim[2] = slicedim[3]
= NO_SLICE_DIM;
break;
default:
fprintf(stderr, "Invalid argument -%c\n", c);
usage(stderr);
return EXIT_FAILURE;
}
if (optind == argc) { /* no parameters left */
usage(stderr);
return EXIT_FAILURE;
}
for (ifile = optind; ifile < argc; ++ifile) {
char *dname, *h5_fname;
h5_fname = split_fname(argv[ifile], &dname);
if (!dname[0])
dname = data_name;
if (verbose) {
int i;
printf("reading from \"%s\"", h5_fname);
for (i = 0; i < 4; ++i)
if (slicedim[i] != NO_SLICE_DIM)
printf(", slice at %d in %c dimension", islice[i],
slicedim[i] == LAST_SLICE_DIM ? 't'
: slicedim[i] + 'x');
printf(".\n");
}
err = arrayh5_read(&a, h5_fname, dname, NULL,
4, slicedim, islice, center_slice);
CHECK(!err, arrayh5_read_strerror[err]);
if (transpose)
arrayh5_transpose(&a);
{
double a_min, a_max;
arrayh5_getrange(a, &a_min, &a_max);
if (verbose)
printf("data ranges from %.*g to %.*g.\n",
dec, a_min, dec, a_max);
}
nx = a.rank < 1 ? 1 : a.dims[0];
ny = a.rank < 2 ? 1 : a.dims[1];
nz = a.rank < 3 ? 1 : a.dims[2];
if (verbose && a.rank <= 3)
printf("writing %s from %dx%dx%d input data.\n",
txt_fname ? txt_fname : "to stdout", nx, ny, nz);
{
FILE *f;
int i, j, k;
if (txt_fname) {
f = fopen(txt_fname, "w");
CHECK(f, "error creating file");
}
else
f = stdout;
if (a.rank < 3)
for (i = 0; i < nx; ++i) {
if (ny > 0)
fprintf(f, "%.*g", dec, a.data[i*ny + 0]);
for (j = 1; j < ny; ++j)
fprintf(f, "%s%.*g", sep, dec, a.data[i*ny + j]);
fprintf(f, "\n");
}
else if (a.rank == 3)
for (i = 0; i < nx; ++i) {
if (i > 0)
fprintf(f, "\n");
for (j = 0; j < ny; ++j) {
int ij = nz * (ny * i + j);
if (nz > 0)
fprintf(f, "%.*g", dec, a.data[ij + 0]);
for (k = 1; k < nz; ++k)
fprintf(f, "%s%.*g",
sep, dec, a.data[ij + k]);
fprintf(f, "\n");
}
}
else {
if (a.N > 0)
fprintf(f, "%.*g", dec, a.data[0]);
for (i = 0; i < a.N; ++i) {
fprintf(f, "%s%.*g", sep, dec, a.data[i]);
}
fprintf(f, "\n");
}
if (txt_fname)
fclose(f);
}
arrayh5_destroy(a);
if (txt_fname)
free(txt_fname);
txt_fname = NULL;
free(h5_fname);
}
free(sep);
free(data_name);
return EXIT_SUCCESS;
}